Tiger Swallowtail Genome Reveals Mechanisms for Speciation and Caterpillar Chemical Defense.
Tiger Swallowtail Genome Reveals Mechanisms for Speciation and Caterpillar Chemical Defense.
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DOI：
10.1016/j.celrep.2015.01.026
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发表时间：
2015-02-17
期刊：
影响因子：
8.8
通讯作者：
Grishin NV
中科院分区：
文献类型：
--
作者：
Cong Q;Borek D;Otwinowski Z;Grishin NV
从基因型预测表型是生物学问题的缩影。适当模式生物的比较基因组学有望使之成为可能。然而，目前许多真核生物的高杂合性阻碍了它们基因组的组装。在这里，我们报道了凤蝶科（Papilio glaucus, Pgl） 376 Mb的基因组序列，这是凤蝶科的第一个基因组序列。我们从野生捕获的标本中获得基因组，采用了一种成本效益高的策略，克服了高（2%）杂合性问题。比较分析表明了各种表型性状的分子基础，包括在凤蝶科特有的器官——孔口中产生萜烯。Pgl和加拿大凤蝶转录组的比较揭示了与它们的差异相关的突变热点（4%的基因）：四个关键的生物钟蛋白在种间突变中富集，可能是蛹滞育差异的原因。最后，Pgl基因组证实了Papilio appalachiensis是Pgl和Pca的杂交品种，但表明其遗传了Pca的3/4基因。燕尾蝶引起了人们的广泛关注。现在，Cong等人展示了用一种适用于高度杂合基因组的方案获得的东部虎燕尾基因组。通过对比分析，对毛虫的化学防御、蛹的冬眠、物种形成机制和杂交物种等方面提供了新的见解。
Predicting phenotype from genotype represents the epitome of biological questions. Comparative genomics of appropriate model organisms holds the promise of making it possible. However, the high heterozygosity of many Eukaryotes currently prohibits assembling their genomes. Here, we report the 376 Mb genome sequence of Papilio glaucus (Pgl), the first sequenced genome from the Papilionidae family. We obtained the genome from a wild-caught specimen using a cost-effective strategy that overcomes the high (2%) heterozygosity problem. Comparative analyses suggest the molecular bases of various phenotypic traits, including terpene production in the Papilionidae-specific organ, osmeterium. Comparison of Pgl and Papilio canadensis transcriptomes reveals mutation hotspots (4% genes) associated with their divergence: four key circadian clock proteins are enriched in inter-species mutations and likely responsible for the difference in pupal diapause. Finally, the Pgl genome confirms Papilio appalachiensis as a hybrid of Pgl and Pca, but suggests it inherited 3/4 of its genes from Pca. The swallowtail butterfly has attracted broad attention from people. Now, Cong et al. present the genome of the Eastern Tiger Swallowtail obtained with a protocol that works for highly heterozygous genomes. Comparative analyses provide insights to caterpillar chemical defense, winter sleep of pupae, speciation mechanisms, and hybrid species.
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影响因子：
5.4
作者：
Cong Q;Grishin NV
通讯作者：
Grishin NV
DOI：
10.1093/bioinformatics/8.3.275
发表时间：
1992-06-01
期刊：
COMPUTER APPLICATIONS IN THE BIOSCIENCES
影响因子：
--
作者：
JONES, DT;TAYLOR, WR;THORNTON, JM
通讯作者：
THORNTON, JM
DOI：
10.1083/jcb.150.2.f83
发表时间：
2000-07-24
期刊：
The Journal of cell biology
影响因子：
--
作者：
Brody T;Cravchik A
通讯作者：
Cravchik A
影响因子：
64.8
作者：
Dasmahapatra, Kanchon K.;Walters, James R.;Briscoe, Adriana D.;Davey, John W.;Whibley, Annabel;Nadeau, Nicola J.;Zimin, Aleksey V.;Hughes, Daniel S. T.;Ferguson, Laura C.;Martin, Simon H.;Salazar, Camilo;Lewis, James J.;Adler, Sebastian;Ahn, Seung-Joon;Baker, Dean A.;Baxter, Simon W.;Chamberlain, Nicola L.;Chauhan, Ritika;Counterman, Brian A.;Dalmay, Tamas;Gilbert, Lawrence E.;Gordon, Karl;Heckel, David G.;Hines, Heather M.;Hoff, Katharina J.;Holland, Peter W. H.;Jacquin-Joly, Emmanuelle;Jiggins, Francis M.;Jones, Robert T.;Kapan, Durrell D.;Kersey, Paul;Lamas, Gerardo;Lawson, Daniel;Mapleson, Daniel;Maroja, Luana S.;Martin, Arnaud;Moxon, Simon;Palmer, William J.;Papa, Riccardo;Papanicolaou, Alexie;Pauchet, Yannick;Ray, David A.;Rosser, Neil;Salzberg, Steven L.;Supple, Megan A.;Surridge, Alison;Tenger-Trolander, Ayse;Vogel, Heiko;Wilkinson, Paul A.;Wilson, Derek;Yorke, James A.;Yuan, Furong;Balmuth, Alexi L.;Eland, Cathlene;Gharbi, Karim;Thomson, Marian;Gibbs, Richard A.;Han, Yi;Jayaseelan, Joy C.;Kovar, Christie;Mathew, Tittu;Muzny, Donna M.;Ongeri, Fiona;Pu, Ling-Ling;Qu, Jiaxin;Thornton, Rebecca L.;Worley, Kim C.;Wu, Yuan-Qing;Linares, Mauricio;Blaxter, Mark L.;Ffrench-Constant, Richard H.;Joron, Mathieu;Kronforst, Marcus R.;Mullen, Sean P.;Reed, Robert D.;Scherer, Steven E.;Richards, Stephen;Mallet, James;McMillan, W. Owen;Jiggins, Chris D.
通讯作者：
Jiggins, Chris D.
影响因子：
1.7
作者：
Jurka, J;Kapitonov, VV;Walichiewicz, J
通讯作者：
Walichiewicz, J